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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ), 'gf_id' => 'HOM05D001020', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001020' ), 'data_identifier' => 'HOM05D001020', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001020', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '594', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A06p47860' => 'bna', 'A09p28570' => 'bna', 'A10p25010' => 'bna', 'Aa31LG3G14450' => 'aar', 'Aa31LG5G3710' => 'aar', 'Actinidia04452' => 'ach', 'Actinidia09666' => 'ach', 'Actinidia09667' => 'ach', 'Actinidia30602' => 'ach', 'Ah.05g168920' => 'amhyb', 'Ah.05g168930' => 'amhyb', 'Ah.05g168940' => 'amhyb', 'AL3G40520' => 'aly', 'AL3G40540' => 'aly', 'AL3G40550' => 'aly', 'AL4G15030' => 'aly', 'AL6G23820' => 'aly', 'AL8G16960' => 'aly', 'AL8G16970' => 'aly', 'Aqoxy249s002' => 'aox', 'Aqoxy3G01762' => 'aox', 'Aqoxy3G01764' => 'aox', 'Aqoxy3G01765' => 'aox', 'Aqoxy3G01773' => 'aox', 'Aqoxy3G01781' => 'aox', 'Aqoxy3G01785' => 'aox', 'Aqoxy3G01786' => 'aox', 'Aqoxy3G04267' => 'aox', 'Aqoxy4G00651' => 'aox', 'Aqoxy4G02327' => 'aox', 'Aqoxy5G03208' => 'aox', 'Aqoxy5G03209' => 'aox', 'Aqoxy5G03210' => 'aox', 'Aqoxy7G01541' => 'aox', 'Aqoxy7G01669' => 'aox', 'Aqoxy7G03554' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19AV4Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3R7UBK' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.85WU3C' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.8SMY56' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A5SP47' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.FE9TG6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GRSA84' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I17ZJY' => 'arhy', 'AT3G24780' => 'ath', 'AT5G13210' => 'ath', 'AT5G43390' => 'ath', 'AT5G43400' => 'ath', 'ATR0582G085' => 'atr', 'ATR0582G256' => 'atr', 'ATR0796G059' => 'atr', 'ATR0796G279' => 'atr', 'ATR1149G089' => 'atr', 'ATR1149G156' => 'atr', 'Atru.chr11.2406' => 'acertr', 'Atru.chr11.2407' => 'acertr', 'Atru.chr11.2408' => 'acertr', 'Atru.chr11.2409' => 'acertr', 'Atru.chr11.2410' => 'acertr', 'Atru.chr4.2081' => 'acertr', 'AUR62002117' => 'cqu', 'AUR62002118' => 'cqu', 'AUR62002119' => 'cqu', 'AUR62002120' => 'cqu', 'AUR62007684' => 'cqu', 'AUR62012006' => 'cqu', 'AUR62013455' => 'cqu', 'AUR62015333' => 'cqu', 'AUR62024139' => 'cqu', 'AUR62028237' => 'cqu', 'AUR62028238' => 'cqu', 'AUR62028239' => 'cqu', 'AUR62032659' => 'cqu', 'AUR62032660' => 'cqu', 'AUR62035320' => 'cqu', 'BcaB01g01497' => 'bca', 'BcaB01g01498' => 'bca', 'BcaC04g19137' => 'bca', 'BcaC04g21056' => 'bca', 'BcaC06g31702' => 'bca', 'BcaC06g34656' => 'bca', 'BolC7t43124H' => 'bol', 'BolC9t56455H' => 'bol', 'BolC9t59227H' => 'bol', 'BraA06t27656Z' => 'bra', 'BraA09t38418Z' => 'bra', 'BraA10t44562Z' => 'bra', 'C07p25970' => 'bna', 'C09p36160' => 'bna', 'C09p36170' => 'bna', 'C09p63870' => 'bna', 'CAN.G135.56' => 'can', 'CAN.G793.41' => 'can', 'CAN.G793.42' => 'can', 'CANSAT54G2304' => 'cansat', 'CARHR148470' => 'chi', 'CARHR180220' => 'chi', 'CARHR183050' => 'chi', 'CARHR200240' => 'chi', 'CARHR200250' => 'chi', 'CARHR200260' => 'chi', 'CARHR257610' => 'chi', 'CARHR257630' => 'chi', 'Carub.0003s2518' => 'cru', 'Carub.0003s3441' => 'cru', 'Carub.0003s3442' => 'cru', 'Carub.0006s1138' => 'cru', 'Carub.0008s0520' => 'cru', 'Carub.0008s0521' => 'cru', 'Ca_04996_v3' => 'car', 'Cc02_g19600' => 'ccan', 'Cc03_g05420' => 'ccan', 'Cc07_g00040' => 'ccan', 'CDE02G2040' => 'cde', 'CDE06G1512' => 'cde', 'Cfa003133' => 'cfa', 'Cfa003409' => 'cfa', 'Cfa005595' => 'cfa', 'Cfa006585' => 'cfa', 'Cfa006586' => 'cfa', 'Cfa009295' => 'cfa', 'Cfa009353' => 'cfa', 'Cfa009358' => 'cfa', 'Cfa009361' => 'cfa', 'Cfa009421' => 'cfa', 'Cfa011160' => 'cfa', 'Cfa016294' => 'cfa', 'Cfa016745' => 'cfa', 'Cfa016746' => 'cfa', 'Cfa020579' => 'cfa', 'Cfa021298' => 'cfa', 'Cfa021300' => 'cfa', 'Cfa021544' => 'cfa', 'Cfa021545' => 'cfa', 'Cfa021546' => 'cfa', 'Cfa022561' => 'cfa', 'Cfa022562' => 'cfa', 'Cfa022563' => 'cfa', 'Cfa025844' => 'cfa', 'Ciclev10004503m.g' => 'ccl', 'Ciclev10006998m.g' => 'ccl', 'Ciclev10033356m.g' => 'ccl', 'CiPaw.02G113300' => 'cil', 'ClCG04G001470' => 'cla', 'COL.COLO4_07196' => 'col', 'COL.COLO4_11011' => 'col', 'COL.COLO4_12825' => 'col', 'COL.COLO4_15862' => 'col', 'COL.COLO4_15986' => 'col', 'COL.COLO4_15988' => 'col', 'COL.COLO4_20345' => 'col', 'COL.COLO4_23626' => 'col', 'COL.COLO4_25232' => 'col', 'COL.COLO4_25233' => 'col', 'COL.COLO4_25234' => 'col', 'COL.COLO4_29553' => 'col', 'COL.COLO4_35808' => 'col', 'COL.COLO4_38087' => 'col', 'Cpa.g.sc188.12' => 'cpa', 'CsaV3_4G031010' => 'csa', 'CSS0009406' => 'camsi', 'CSS0009630' => 'camsi', 'CSS0010220' => 'camsi', 'CSS0014198' => 'camsi', 'CSS0016216' => 'camsi', 'CSS0016856' => 'camsi', 'CSS0017302' => 'camsi', 'CSS0018937' => 'camsi', 'CSS0039921' => 'camsi', 'CSS0046099' => 'camsi', 'CSS0048799' => 'camsi', 'DCAR_002322' => 'dca', 'DCAR_002345' => 'dca', 'DCAR_002346' => 'dca', 'DCAR_002348' => 'dca', 'DCAR_011932' => 'dca', 'DCAR_011933' => 'dca', 'DCAR_016185' => 'dca', 'DCAR_018408' => 'dca', 'DCAR_018409' => 'dca', 'DCAR_030719' => 'dca', 'DCAR_030720' => 'dca', 'DCAR_030725' => 'dca', 'DCAR_030740' => 'dca', 'Dinv06053' => 'din', 'Dinv10757' => 'din', 'Dinv14813' => 'din', 'Dinv24155' => 'din', 'Dinv27626' => 'din', 'Dinv27627' => 'din', 'Dinv29874' => 'din', 'Dinv33703' => 'din', 'Duzib151G0263' => 'dzi', 'Duzib151G0436' => 'dzi', 'Duzib151G1001' => 'dzi', 'Duzib151G1008' => 'dzi', 'Duzib205G0026' => 'dzi', 'ECA233G2438' => 'eca', 'ECA233G3414' => 'eca', 'ECA238G3582' => 'eca', 'ECA240G0429' => 'eca', 'ECA240G2966' => 'eca', 'ECA240G4289' => 'eca', 'ECA240G4296' => 'eca', 'ECA246G0667' => 'eca', 'ECA246G1399' => 'eca', 'ECA246G2777' => 'eca', 'EL10Ac1g01388' => 'bvu', 'EL10Ac3g05021' => 'bvu', 'EL10Ac3g06193' => 'bvu', 'EL10Ac3g06885' => 'bvu', 'EL10Ac4g08999' => 'bvu', 'Eucgr.H03370' => 'egr', 'Eucgr.H03371' => 'egr', 'Eucgr.H03372' => 'egr', 'Eucgr.H03373' => 'egr', 'FAN02G1011' => 'fan', 'FAN04G0595' => 'fan', 'FAN04G1056' => 'fan', 'FAN04G1281' => 'fan', 'FAN04G1590' => 'fan', 'FAN04G3057' => 'fan', 'FAN04G3161' => 'fan', 'FAN05G1076' => 'fan', 'FAN07G2000' => 'fan', 'FAN08G2488' => 'fan', 'FAN12G1736' => 'fan', 'FAN12G2612' => 'fan', 'FAN12G2653' => 'fan', 'FAN12G2930' => 'fan', 'FAN13G0706' => 'fan', 'FAN13G1367' => 'fan', 'FAN13G3310' => 'fan', 'FAN14G1037' => 'fan', 'FAN15G0269' => 'fan', 'FAN15G0713' => 'fan', 'FAN15G1204' => 'fan', 'FAN15G2309' => 'fan', 'FAN15G2729' => 'fan', 'FAN15G2905' => 'fan', 'FAN15G3757' => 'fan', 'FAN16G0580' => 'fan', 'FAN16G0714' => 'fan', 'FAN16G1581' => 'fan', 'FAN17G0723' => 'fan', 'FAN17G1247' => 'fan', 'FAN18G0410' => 'fan', 'FAN18G0521' => 'fan', 'FAN18G0822' => 'fan', 'FAN18G0912' => 'fan', 'FAN18G1788' => 'fan', 'FAN18G1932' => 'fan', 'FAN18G1995' => 'fan', 'FAN20G0925' => 'fan', 'FAN20G2481' => 'fan', 'FAN22G0424' => 'fan', 'FAN23G0036' => 'fan', 'FAN23G0144' => 'fan', 'FAN24G1190' => 'fan', 'FvH4_2g04500' => 'fve', 'FvH4_2g04520' => 'fve', 'FvH4_2g04540' => 'fve', 'FvH4_2g04550' => 'fve', 'FvH4_4g23010' => 'fve', 'FvH4_5g12462' => 'fve', 'FvH4_5g12490' => 'fve', 'FvH4_5g12491' => 'fve', 'FvH4_5g20030' => 'fve', 'FvH4_5g20031' => 'fve', 'FvH4_5g21510' => 'fve', 'FvH4_6g30070' => 'fve', 'Glyma.01G061800' => 'gma', 'Gohir.A03G003400' => 'ghi', 'Gohir.A10G107000' => 'ghi', 'Gohir.D03G168966' => 'ghi', 'Gorai.003G179100' => 'gra', 'GSVIVG01000961001' => 'vvi', 'GSVIVG01027776001' => 'vvi', 'GSVIVG01027783001' => 'vvi', 'HanXRQChr06g0175011' => 'han', 'HanXRQChr13g0422141' => 'han', 'Haze_04908' => 'cav', 'Haze_09264' => 'cav', 'Haze_09432' => 'cav', 'Haze_09465' => 'cav', 'Haze_11354' => 'cav', 'Haze_11355' => 'cav', 'Haze_11358' => 'cav', 'Haze_11359' => 'cav', 'Haze_12344' => 'cav', 'Haze_12357' => 'cav', 'Haze_12405' => 'cav', 'Haze_12407' => 'cav', 'Haze_12477' => 'cav', 'Haze_19758' => 'cav', 'Haze_23634' => 'cav', 'Haze_25745' => 'cav', 'Haze_25748' => 'cav', 'Haze_25750' => 'cav', 'Hma1.2p1_0267F.1_g107310' => 'hma', 'Hma1.2p1_0459F.1_g157180' => 'hma', 'Hma1.2p1_0459F.1_g157190' => 'hma', 'HPP92_021902' => 'vpl', 'HPP92_021903' => 'vpl', 'Lalb_Chr04g0253271' => 'lal', 'Lalb_Chr17g0341291' => 'lal', 'Lalb_Chr17g0341301' => 'lal', 'Lj2g0005108' => 'lja', 'Lj2g0015122' => 'lja', 'Lj2g0019120' => 'lja', 'Lj2g0021750' => 'lja', 'Lj3g0023371' => 'lja', 'Lj3P771T12' => 'lonja', 'Lj3P771T31' => 'lonja', 'Lj5P217T76' => 'lonja', 'Lj6A663T84' => 'lonja', 'Lj6C663G9' => 'lonja', 'Lj6P835T13' => 'lonja', 'Lsat_1_v5_gn_3_121861' => 'lsa', 'Lsat_1_v5_gn_3_121881' => 'lsa', 'Lsat_1_v5_gn_3_139641' => 'lsa', 'Manes.09G186000' => 'mes', 'Manes.09G186101' => 'mes', 'Mapoly0087s0003' => 'mpo', 'MBI07_g36280_MAGBIO' => 'mbi', 'MBI07_g36281_MAGBIO' => 'mbi', 'MD00G1095100' => 'mdo', 'MD00G1097200' => 'mdo', 'MD00G1160400' => 'mdo', 'MD00G1160800' => 'mdo', 'MD00G1160900' => 'mdo', 'MD00G1207400' => 'mdo', 'MD03G1055000' => 'mdo', 'MD04G1053500' => 'mdo', 'MD05G1095800' => 'mdo', 'MD05G1180200' => 'mdo', 'MD05G1180300' => 'mdo', 'MD05G1186800' => 'mdo', 'MD05G1215400' => 'mdo', 'MD05G1257700' => 'mdo', 'MD05G1259500' => 'mdo', 'MD05G1260100' => 'mdo', 'MD05G1260200' => 'mdo', 'MD06G1159400' => 'mdo', 'MD06G1159500' => 'mdo', 'MD06G1162500' => 'mdo', 'MD06G1164600' => 'mdo', 'MD06G1187700' => 'mdo', 'MD06G1187800' => 'mdo', 'MD06G1187900' => 'mdo', 'MD06G1188000' => 'mdo', 'MD06G1198700' => 'mdo', 'MD06G1212600' => 'mdo', 'MD06G1212700' => 'mdo', 'MD06G1229000' => 'mdo', 'MD07G1028900' => 'mdo', 'MD10G1031200' => 'mdo', 'MD10G1031400' => 'mdo', 'MD12G1072700' => 'mdo', 'MD13G1126800' => 'mdo', 'MD14G1168300' => 'mdo', 'MD14G1206600' => 'mdo', 'MD14G1206700' => 'mdo', 'MD14G1223900' => 'mdo', 'MD14G1230800' => 'mdo', 'MD14G1230900' => 'mdo', 'MD15G1240300' => 'mdo', 'MD15G1416800' => 'mdo', 'MD15G1416900' => 'mdo', 'MD15G1442400' => 'mdo', 'MD16G1127300' => 'mdo', 'MD17G1037200' => 'mdo', 'Medtr3g103410' => 'mtr', 'Medtr5g045130' => 'mtr', 'Medtr5g045160' => 'mtr', 'Medtr6g445440' => 'mtr', 'MELO3C008979.2' => 'cme', 'Migut.L01909' => 'egut', 'MSTRG.10460' => 'ama', 'Nitab4.5_0000044g0110' => 'nta', 'Nitab4.5_0000044g0120' => 'nta', 'Nitab4.5_0000044g0130' => 'nta', 'Nitab4.5_0000593g0050' => 'nta', 'Nitab4.5_0002464g0010' => 'nta', 'Nitab4.5_0003299g0010' => 'nta', 'Nitab4.5_0003408g0070' => 'nta', 'Nitab4.5_0004343g0010' => 'nta', 'Nitab4.5_0004343g0020' => 'nta', 'Nitab4.5_0004343g0030' => 'nta', 'Nitab4.5_0004812g0020' => 'nta', 'Nitab4.5_0004812g0040' => 'nta', 'Nitab4.5_0004812g0060' => 'nta', 'Nn1g01997' => 'nnu', 'Oeu055204.1' => 'oeu', 'Os02g0179600' => 'osa', 'Os06g0652100' => 'osa', 'Os09g0499400' => 'osa', 'Os09g0499500' => 'osa', 'Os12g0141800' => 'osa', 'Peaxi162Scf00024g00302' => 'pax', 'Peaxi162Scf00024g00311' => 'pax', 'Peaxi162Scf00024g03012' => 'pax', 'Peaxi162Scf00024g03215' => 'pax', 'Peaxi162Scf00128g01112' => 'pax', 'Peaxi162Scf00316g00001' => 'pax', 'Peaxi162Scf00336g00172' => 'pax', 'Peaxi162Scf00409g00093' => 'pax', 'Peaxi162Scf00928g00010' => 'pax', 'PGR057G0002' => 'pgr', 'PGR102G2910' => 'pgr', 'PGR102G3069' => 'pgr', 'PGR119G2255' => 'pgr', 'PGSC0003DMG400011710' => 'stu', 'PGSC0003DMG400011711' => 'stu', 'PGSC0003DMG400017230' => 'stu', 'PGSC0003DMG400027351' => 'stu', 'PGSC0003DMG400043938' => 'stu', 'Phvul.002G119600' => 'pvu', 'Potri.003G165200' => 'ptr', 'Potri.009G091400' => 'ptr', 'Prupe.1G152600' => 'ppe', 'Prupe.1G218700' => 'ppe', 'Prupe.2G155300' => 'ppe', 'Prupe.4G045100' => 'ppe', 'Prupe.4G110200' => 'ppe', 'Prupe.4G206600' => 'ppe', 'Prupe.5G035500' => 'ppe', 'Prupe.5G035900' => 'ppe', 'Prupe.5G159300' => 'ppe', 'Prupe.5G172200' => 'ppe', 'Prupe.5G172300' => 'ppe', 'Prupe.5G173200' => 'ppe', 'Prupe.5G173300' => 'ppe', 'Prupe.5G173400' => 'ppe', 'Prupe.5G186100' => 'ppe', 'Prupe.5G186200' => 'ppe', 'Prupe.5G187200' => 'ppe', 'Prupe.5G194100' => 'ppe', 'Prupe.5G199600' => 'ppe', 'Prupe.5G201900' => 'ppe', 'Prupe.5G205000' => 'ppe', 'Prupe.5G210300' => 'ppe', 'Prupe.5G212500' => 'ppe', 'Prupe.5G219000' => 'ppe', 'Prupe.5G219100' => 'ppe', 'Prupe.5G219200' => 'ppe', 'Prupe.5G229700' => 'ppe', 'Prupe.7G060500' => 'ppe', 'Prupe.7G101200' => 'ppe', 'Prupe.7G180400' => 'ppe', 'Prupe.8G033200' => 'ppe', 'Prupe.8G043600' => 'ppe', 'Prupe.8G139800' => 'ppe', 'Prupe.8G139900' => 'ppe', 'Prupe.8G140000' => 'ppe', 'Prupe.8G140100' => 'ppe', 'Prupe.8G140200' => 'ppe', 'Psat2g131480' => 'psa', 'Psat2g131520' => 'psa', 'PSO017G0125' => 'pso', 'PSO017G5440' => 'pso', 'PSO017G6483' => 'pso', 'PSO170G2024' => 'pso', 'PSO210G4290' => 'pso', 'PSO210G5699' => 'pso', 'PSO421G0430' => 'pso', 'PSO478G0081' => 'pso', 'PSO478G1194' => 'pso', 'PSO478G2143' => 'pso', 'PSO675G4770' => 'pso', 'PSO675G7975' => 'pso', 'PSO832G3618' => 'pso', 'QL01p039054' => 'qlo', 'QL03p005801' => 'qlo', 'QL03p011118' => 'qlo', 'QL03p050166' => 'qlo', 'QL03p050225' => 'qlo', 'QL03p056500' => 'qlo', 'QL03p062568' => 'qlo', 'QL03p062642' => 'qlo', 'QL03p066006' => 'qlo', 'QL03p066129' => 'qlo', 'QL03p068311' => 'qlo', 'QL05p030563' => 'qlo', 'QL06p001797' => 'qlo', 'QL06p017147' => 'qlo', 'QL06p017149' => 'qlo', 'QL06p050748' => 'qlo', 'QL08p022056' => 'qlo', 'QL11p032020' => 'qlo', 'QL11p032028' => 'qlo', 'QL11p032033' => 'qlo', 'RcHm_v2.0_Chr2g0136111' => 'rch', 'RcHm_v2.0_Chr4g0429291' => 'rch', 'RcHm_v2.0_Chr6g0254021' => 'rch', 'RcHm_v2.0_Chr6g0254031' => 'rch', 'RcHm_v2.0_Chr6g0254051' => 'rch', 'RcHm_v2.0_Chr6g0254071' => 'rch', 'RcHm_v2.0_Chr6g0254131' => 'rch', 'RcHm_v2.0_Chr7g0184981' => 'rch', 'RcHm_v2.0_Chr7g0184991' => 'rch', 'RcHm_v2.0_Chr7g0185001' => 'rch', 'RcHm_v2.0_Chr7g0204841' => 'rch', 'Rhsim02G0036300' => 'rsi', 'Rhsim02G0036400' => 'rsi', 'Rhsim02G0036500' => 'rsi', 'Rhsim02G0036600' => 'rsi', 'Rhsim02G0036700' => 'rsi', 'Rhsim02G0036800' => 'rsi', 'Rhsim04G0184500' => 'rsi', 'Rhsim05G0089800' => 'rsi', 'Rhsim08G0161800' => 'rsi', 'Rhsim12G0019700' => 'rsi', 'Rhsim12G0019800' => 'rsi', 'Rhsim12G0019900' => 'rsi', 'Rhsim12G0020100' => 'rsi', 'Rhsim12G0020300' => 'rsi', 'Rhsim12G0020400' => 'rsi', 'Rhsim12G0020500' => 'rsi', 'Rhsim12G0103500' => 'rsi', 'RhsimUnG0132400' => 'rsi', 'Sabra03G0120300' => 'sbr', 'Sabra03G0120400' => 'sbr', 'Sabra09G0070600' => 'sbr', 'SalBow5G3948' => 'sbo', 'SalBow5G5676' => 'sbo', 'SalBow7G1706' => 'sbo', 'SalBow8G0030' => 'sbo', 'SalBow8G2318' => 'sbo', 'SalBow8G4028' => 'sbo', 'SalBow8G5175' => 'sbo', 'Sc24g0002390' => 'sci', 'Sed0009996' => 'sed', 'Sed0026107' => 'sed', 'SEGI_23534' => 'sgi', 'SEGI_35188' => 'sgi', 'SGA_v2.0_scaffold106G30709' => 'sas', 'SGA_v2.0_scaffold106G30714' => 'sas', 'SGA_v2.0_scaffold106G30716' => 'sas', 'SGA_v2.0_scaffold108G30957' => 'sas', 'SGA_v2.0_scaffold10G05440' => 'sas', 'SGA_v2.0_scaffold132G34563' => 'sas', 'SGA_v2.0_scaffold138G35178' => 'sas', 'SGA_v2.0_scaffold13G06394' => 'sas', 'SGA_v2.0_scaffold21G09627' => 'sas', 'SGA_v2.0_scaffold21G09639' => 'sas', 'SGA_v2.0_scaffold32G12982' => 'sas', 'SGA_v2.0_scaffold409G51094' => 'sas', 'SGA_v2.0_scaffold41G15836' => 'sas', 'SGA_v2.0_scaffold41G15853' => 'sas', 'SGA_v2.0_scaffold41G15859' => 'sas', 'SGA_v2.0_scaffold79G25626' => 'sas', 'SHI14711' => 'shi', 'SMO198G0018' => 'smo', 'SMO198G0049' => 'smo', 'SMO272G0027' => 'smo', 'Solyc01g009530.1' => 'sly', 'Solyc01g009540.1' => 'sly', 'Solyc09g089940.1' => 'sly', 'Sopen01g005080' => 'spe', 'Sopen09g032870' => 'spe', 'Sp2g08280' => 'spa', 'TAR622G1374' => 'tar', 'THA.LOC104801086' => 'tha', 'THA.LOC104825473' => 'tha', 'Thecc.02G195900' => 'tca', 'Thecc.04G253700' => 'tca', 'Thecc.04G267200' => 'tca', 'Thhalv10003164m.g' => 'esa', 'Thhalv10012951m.g' => 'esa', 'Thhalv10015490m.g' => 'esa', 'TPR.G22958' => 'tpr', 'TPR.G23749' => 'tpr', 'TPR.G23758' => 'tpr', 'TPR.G36307' => 'tpr', 'TWI36G1259' => 'twi', 'vmacro08497' => 'vma', 'vmacro13889' => 'vma', 'vmacro15433' => 'vma', 'vmacro15434' => 'vma', 'vmacro15436' => 'vma', 'vmacro16757' => 'vma', 'vmacro23160' => 'vma', 'vmacro23161' => 'vma', 'VMungo0331G1239' => 'vmu', 'VMungo1215G0156' => 'vmu', 'VMungo1215G0384' => 'vmu', 'Zm00001eb206670' => 'zma', 'Zm00001eb217520' => 'zma', 'Zm00001eb217530' => 'zma', 'Zm00001eb220150' => 'zma', 'Zm00001eb220160' => 'zma', 'Zm00001eb220170' => 'zma', 'Zm00001eb385690' => 'zma' ) $gf_id = 'HOM05D001020' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001020' ) $data_identifier = 'HOM05D001020' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 7, 'aar' => (int) 2, 'ach' => (int) 4, 'amhyb' => (int) 3, 'aly' => (int) 7, 'aox' => (int) 17, 'arhy' => (int) 8, 'ath' => (int) 4, 'atr' => (int) 6, 'acertr' => (int) 6, 'cqu' => (int) 15, 'bca' => (int) 6, 'bol' => (int) 3, 'bra' => (int) 3, 'can' => (int) 3, 'cansat' => (int) 1, 'chi' => (int) 8, 'cru' => (int) 6, 'car' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 2, 'cfa' => (int) 24, 'ccl' => (int) 3, 'cil' => (int) 1, 'cla' => (int) 1, 'col' => (int) 14, 'cpa' => (int) 1, 'csa' => (int) 1, 'camsi' => (int) 11, 'dca' => (int) 13, 'din' => (int) 8, 'dzi' => (int) 5, 'eca' => (int) 10, 'bvu' => (int) 5, 'egr' => (int) 4, 'fan' => (int) 43, 'fve' => (int) 12, 'gma' => (int) 1, 'ghi' => (int) 3, 'gra' => (int) 1, 'vvi' => (int) 3, 'han' => (int) 2, 'cav' => (int) 18, 'hma' => (int) 3, 'vpl' => (int) 2, 'lal' => (int) 3, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 2, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mdo' => (int) 46, 'mtr' => (int) 4, 'cme' => (int) 1, 'egut' => (int) 1, 'ama' => (int) 1, 'nta' => (int) 13, 'nnu' => (int) 1, 'oeu' => (int) 1, 'osa' => (int) 5, 'pax' => (int) 9, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 1, 'ptr' => (int) 2, 'ppe' => (int) 37, 'psa' => (int) 2, 'pso' => (int) 13, 'qlo' => (int) 20, 'rch' => (int) 11, 'rsi' => (int) 18, 'sbr' => (int) 3, 'sbo' => (int) 7, 'sci' => (int) 1, 'sed' => (int) 2, 'sgi' => (int) 2, 'sas' => (int) 16, 'shi' => (int) 1, 'smo' => (int) 3, 'sly' => (int) 3, 'spe' => (int) 2, 'spa' => (int) 1, 'tar' => (int) 1, 'tha' => (int) 2, 'tca' => (int) 3, 'esa' => (int) 3, 'tpr' => (int) 4, 'twi' => (int) 1, 'vma' => (int) 8, 'vmu' => (int) 3, 'zma' => (int) 7 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb385690' $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